Protein Info for AMB_RS04560 in Magnetospirillum magneticum AMB-1

Annotation: C4-dicarboxylate ABC transporter

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 337 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details TIGR00787: TRAP transporter solute receptor, DctP family" amino acids 32 to 287 (256 residues), 332.4 bits, see alignment E=9.3e-104 PF03480: DctP" amino acids 32 to 314 (283 residues), 368.3 bits, see alignment E=1.4e-114

Best Hits

Swiss-Prot: 72% identical to DCTP_RHOCA: C4-dicarboxylate-binding periplasmic protein DctP (dctP) from Rhodobacter capsulatus

KEGG orthology group: K11688, C4-dicarboxylate-binding protein DctP (inferred from 100% identity to mag:amb0895)

Predicted SEED Role

"TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein" in subsystem Sialic Acid Metabolism

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See Q2W8X6 at UniProt or InterPro

Protein Sequence (337 amino acids)

>AMB_RS04560 C4-dicarboxylate ABC transporter (Magnetospirillum magneticum AMB-1)
MKLGTLIAGAIAACVLAGSAMAQQAQPIVIKFSHVVAPDTPKGKGAEYFKKLAEERTKGR
VKVEVYPNSQLYKDKEEMEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPSKDVLR
SVTGGPVGASLLKKLEGKGIIGLAYWDNGFKIMSANKPIKAPSDLKGVKMRIQSSKVLDA
EMRALGALPQVMAFSEVYQALQTGVVDGTENPPSNMYTQKMHEVQKHATMTNHGYLGYAV
IVNKKFWEGLPADIRATLEGAMSEASVFANAIAQTENDDAVKAMKASGKTEFHDPSAAEI
EAWRKALLPVHKDMEGRVGKDLIESFYKEAAKFGFKN